Knowledge Management System Of Institute of Oceanology, Chinese Academy of Sciences
| High-Quality Genome Assembly of Eriocheir japonica sinensis Reveals Its Unique Genome Evolution | |
Tang, Boping1; Wang, Zhongkai2; Liu, Qiuning1; Zhang, Huabin1; Jiang, Senhao1; Li, Xinzheng3; Wang, Zhengfei1; Sun, Yue1; Sha, Zhongli3 ; Jiang, Hui4,5; Wu, Xugan6; Ren, Yandong2; Li, Haorong2; Xuan, Fujun1; Ge, Baoming1; Jiang, Wei3; She, Shusheng7; Sun, Hongying8; Qiu, Qiang2; Wang, Wen2; Wang, Qun9; Qiu, Gaofeng6; Zhang, Daizhen1; Li, Yongxin2
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| 2020-01-17 | |
| 发表期刊 | FRONTIERS IN GENETICS
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| 卷号 | 10页码:9 |
| 通讯作者 | Wang, Qun(qwang@bio.ecnu.edu.cn) ; Qiu, Gaofeng(gfqiu@shou.edu.cn) ; Zhang, Daizhen(daizhen79wenxin@163.com) ; Li, Yongxin(yxli28science@sina.com) |
| 摘要 | As an important freshwater aquaculture species in China, the Chinese mitten crab (Eriocheir japonica sinensis) has high economic and nutritional value. However, limited genomic information is currently available for studying its basic development and genetic diversity. Here, we performed whole-genome sequencing on Oxford Nanopore Technologies Limited's platform using promethION. The assembled size of E. j.sinensis genome was approximately 1.27 Gb, which is close to the estimated size (1.19 Gb). Furthermore, based on assessment using Benchmarking Universal Single-Copy Orthologs (BUSCO) (Simao et al., 2015), 94.00% of the expected eukaryotic genes were completely present in the genome assembly. In addition, repetitive sequences accounted for similar to 61.42% of the assembled genome, and 22,619 protein-coding genes were annotated. Comparative genomics analysis demonstrated that the Chinese mitten crab diverged from Penaeus vannamei similar to 373.6 million years ago, with a faster evolution rate than shrimp. We anticipate that the annotated high-quality genome of E. j. sinensis will promote research on its basic development and evolution and make substantial contributions to comparative genomic analyses of crustaceans. |
| 关键词 | Eriocheir japonica sinensis evolution nanopore crab genome assembly and annotation |
| DOI | 10.3389/fgene.2019.01340 |
| 收录类别 | SCI |
| 语种 | 英语 |
| 资助项目 | National Natural Science Foundation of China[31672267] ; National Natural Science Foundation of China[31640074] ; Jiangsu Agriculture Science and Technology Innovation Fund[CX(18) 3027] ; Natural Science Foundation of Jiangsu Province[BK20171276] ; Natural Science Foundation of Jiangsu Province[BK20160444] ; China Postdoctoral Science Foundation[2018M642105] ; National Key R&D Programof China[2018YFD0900201] ; Qing Lan Project of Daizhen Zhang |
| WOS研究方向 | Genetics & Heredity |
| WOS类目 | Genetics & Heredity |
| WOS记录号 | WOS:000510907600001 |
| 出版者 | FRONTIERS MEDIA SA |
| 引用统计 | |
| 文献类型 | 期刊论文 |
| 条目标识符 | http://ir.qdio.ac.cn/handle/337002/165335 |
| 专题 | 中国科学院海洋研究所 |
| 通讯作者 | Wang, Qun; Qiu, Gaofeng; Zhang, Daizhen; Li, Yongxin |
| 作者单位 | 1.Yancheng Teachers Univ, Jiangsu Synthet Innovat Ctr Coastal Bioagr, Jiangsu Prov Key Lab Coastal Wetland Bioresources, Jiangsu Key Lab Bioresources Saline Soils, Yancheng, Peoples R China 2.Northwestern Polytech Univ, Ctr Ecol & Environm Sci, Xian, Peoples R China 3.Chinese Acad Sci, Inst Oceanol, Qingdao, Peoples R China 4.Zhejiang Ocean Univ, Natl Engn Lab Marine Germplasm Resources Explorat, Zhoushan, Peoples R China 5.Zhejiang Ocean Univ, Natl Engn Res Ctr Facilitated Marine Aquaculture, Zhoushan, Peoples R China 6.Shanghai Ocean Univ, Key Lab Freshwater Aquat Genet Resources, Minist Agr & Rural Affairs, Shanghai, Peoples R China 7.China Hong Kong Ecol Consultant Co, Hong Kong, Peoples R China 8.Nanjing Normal Univ, Coll Life Sci, Nanjing, Peoples R China 9.East China Normal Univ, Sch Life Sci, Dept Biol, Shanghai, Peoples R China |
| 推荐引用方式 GB/T 7714 | Tang, Boping,Wang, Zhongkai,Liu, Qiuning,et al. High-Quality Genome Assembly of Eriocheir japonica sinensis Reveals Its Unique Genome Evolution[J]. FRONTIERS IN GENETICS,2020,10:9. |
| APA | Tang, Boping.,Wang, Zhongkai.,Liu, Qiuning.,Zhang, Huabin.,Jiang, Senhao.,...&Li, Yongxin.(2020).High-Quality Genome Assembly of Eriocheir japonica sinensis Reveals Its Unique Genome Evolution.FRONTIERS IN GENETICS,10,9. |
| MLA | Tang, Boping,et al."High-Quality Genome Assembly of Eriocheir japonica sinensis Reveals Its Unique Genome Evolution".FRONTIERS IN GENETICS 10(2020):9. |
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| 文件名称/大小 | 文献类型 | 版本类型 | 开放类型 | 使用许可 | ||
| fgene-10-01340.pdf（804KB） | 期刊论文 | 出版稿 | 限制开放 | CC BY-NC-SA | 浏览 | |
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