Improved Gossypium raimondii genome using a Hi-C-based proximity-guided assembly

文献类型： 外文期刊

第一作者： Yang Qiuhong

作者： Yang Qiuhong;Zuo Dongyun;Cheng Hailiang;Zhang Youping;Wang Qiaolian;Ashraf, Javaria;Feng Xiaoxu;LI Simin;Chen Xiaoqin;Liu Shang;Song Guoli

作者机构：

关键词： Gossypium raimondii; Hi-C; Genome assembly; Heatmap and collinearity

期刊名称：JOURNAL OF COTTON RESEARCH （ 影响因子：2.6； 五年影响因子：2.8 ）

ISSN： 2096-5044

年卷期： 2021 年 4 卷 1 期

页码：

收录情况： SCI

摘要： Introduction Genome sequence plays an important role in both basic and applied studies. Gossypium raimondii, the putative contributor of the D subgenome of upland cotton (G. hirsutum), highlights the need to improve the genome quality rapidly and efficiently. Methods We performed Hi-C sequencing of G. raimondii and reassembled its genome based on a set of new Hi-C data and previously published scaffolds. We also compared the reassembled genome sequence with the previously published G. raimondii genomes for gene and genome sequence collinearity. Result A total of 98.42% of scaffold sequences were clustered successfully, among which 99.72% of the clustered sequences were ordered and 99.92% of the ordered sequences were oriented with high-quality. Further evaluation of results by heat-map and collinearity analysis revealed that the current reassembled genome is significantly improved than the previous one (Nat Genet 44:98-1103, 2012). Conclusion This improvement in G. raimondii genome not only provides a better reference to increase study efficiency but also offers a new way to assemble cotton genomes. Furthermore, Hi-C data of G. raimondii may be used for 3D structure research or regulating analysis.

分类号：

  • 相关文献
作者其他论文 更多>>

微信小程序