您好，欢迎访问中国水产科学研究院 机构知识库！
中国水产科学研究院机构知识库

全部

  • 全部
  • 标题
  • 学者
  • 机构
  • 关键词

Chromosomal-level assembly of the blood clam, Scapharca (Anadara) broughtonii, using long sequence reads and Hi-C

文献类型： 外文期刊

作者： Bai, Chang-Ming 1 ; Xin, Lu-Sheng 1 ; Rosani, Umberto 5 ; Wu, Biao 1 ; Wang, Qing-Chen 1 ; Duan, Xiao-Ke 7 ; Liu, Zhi- 1 ;

作者机构： 1.Chinese Acad Fishery Sci, Key Lab Maricultural Organism Dis Control, Minist Agr, 106 Nanjing Rd, Qingdao 266071, Shandong, Peoples R China

2.Chinese Acad Fishery Sci, Lab Marine Fisheries Sci & Food Prod Proc, Qingdao Natl Lab Marine Sci & Technol, 106 Nanjing Rd, Qingdao 266071, Shandong, Peoples R China

3.Chinese Acad Fishery Sci, Qingdao Key Lab Mariculture Epidemiol & Biosecuri, 106 Nanjing Rd, Qingdao 266071, Shandong, Peoples R China

4.Chinese Acad Fishery Sci, Yellow Sea Fisheries Res Inst, 106 Nanjing Rd, Qingdao 266071, Shandong, Peoples R China

5.Univ Padua, Dept Biol, Via Ugo Bassi 58-B, I-35121 Padua, Italy

6.Helmholtz Ctr Polar & Marine Res, Alfred Wegener Inst, Wadden Sea Stn, Hafenstr 43, D-25992 List Auf Sylt, Germany

7.Biomarker Technol Corp, 12 Fuqian St, Beijing 101200, Peoples R China

关键词： ark shell; PacBio; Hi-C; genomic; chromosomal assembly

期刊名称：GIGASCIENCE （ 影响因子：6.524； 五年影响因子：8.702 ）

ISSN： 2047-217X

年卷期： 2019 年 8 卷 7 期

页码：

收录情况： SCI

摘要： Background: The blood clam, Scapharca (Anadara) broughtonii, is an economically and ecologically important marine bivalve of the family Arcidae. Efforts to study their population genetics, breeding, cultivation, and stock enrichment have been somewhat hindered by the lack of a reference genome. Herein, we report the complete genome sequence of S. broughtonii, a first reference genome of the family Arcidae. Findings: A total of 75.79 Gb clean data were generated with the Pacific Biosciences and Oxford Nanopore platforms, which represented approximately 86x coverage of the S. broughtonii genome. De novo assembly of these long reads resulted in an 884.5-Mb genome, with a contig N50 of 1.80 Mb and scaffold N50 of 45.00 Mb. Genome Hi-C scaffolding resulted in 19 chromosomes containing 99.35% of bases in the assembled genome. Genome annotation revealed that nearly half of the genome (46.1%) is composed of repeated sequences, while 24,045 protein-coding genes were predicted and 84.7% of them were annotated. Conclusions: We report here a chromosomal-level assembly of the S. broughtonii genome based on long-read sequencing and Hi-C scaffolding. The genomic data can serve as a reference for the family Arcidae and will provide a valuable resource for the scientific community and aquaculture sector.

  • 相关文献
作者其他论文 更多>>
置顶
购物车
反馈

© 京ICP备09089781号-29 主办单位：中国水产科学研究院

学术资源： 中国农业科学院 农业专业知识服务系统 农科联盟资源共建共享平台 中国农业科技文献与信息服务平台 中国农业期刊集成服务平台