A Chromosome-Level Genome Assembly of the Dark Sleeper Odontobutis potamophila.
A Chromosome-Level Genome Assembly of the Dark Sleeper Odontobutis potamophila.
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DOI：
10.1093/gbe/evaa271
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发表时间：
2021-02-03
影响因子：
3.3
通讯作者：
Gu Z
中科院分区：
文献类型：
--
作者：
Jia Y;Zheng J;Liu S;Li F;Chi M;Cheng S;Gu Z
河沙塘鳢（Odontobutispotamophila）是一种重要的经济鱼类，广泛分布于我国及东南亚国家。生长的两性异形现象十分明显，雄性个体的生长速度明显快于雌性个体。然而，目前尚缺乏高质量的基因组资源，难以深入研究性别决定机制，从而开展性别控制育种。在这里，从Illumina读数、10 × Genomics测序和Hi-C染色质相互作用测序的组合中生成了嗜河稻的染色体水平基因组组装。组装的基因组为1，134.62 Mb，重叠群N50为22.25 Mb，支架N50为24.85 Mb，代表94.4%的完整性（基准通用单拷贝直系同源物）。使用Hi-C数据，总重叠群碱基的96.49%锚定到22条染色体，重叠群N50为22.25 Mb，支架N50为47.68 Mb。大约54.18%的基因组被鉴定为重复元件，并且在基因组中注释了23，923个蛋白质编码基因。组装的基因组可为今后的分子育种和功能研究提供宝贵的资源。
The dark sleeper, Odontobutis potamophila, is a commercially valuable fish that widely distributed in China and Southeast Asia countries. The phenomenon of sexual dimorphism in growth is conspicuous, which the males grow substantially larger and faster than the females. However, the high-quality genome resources for gaining insight into sex-determining mechanisms to develop sex-control breeding are still lacking. Here, a chromosomal-level genome assembly of O. potamophila was generated from a combination of Illumina reads, 10× Genomics sequencing, and Hi-C chromatin interaction sequencing. The assembled genome was 1,134.62 Mb with a contig N50 of 22.25 Mb and a scaffold N50 of 24.85 Mb, representing 94.4% completeness (Benchmarking Universal Single-Copy Orthologs). Using Hi-C data, 96.49% of the total contig bases were anchored to the 22 chromosomes, with a contig N50 of 22.25 Mb and a scaffold N50 of 47.68 Mb. Approximately 54.18% of the genome were identified as repetitive elements, and 23,923 protein-coding genes were annotated in the genome. The assembled genome can be used as a valuable resource for molecular breeding and functional studies of O. potamophila in the future.
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