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

作　　者：YANG Qiuhong ZUO Dongyun CHENG Hailiang ZHANG Youping WANG Qiaolian JAVARIA Ashraf FENG Xiaoxu LI Simin CHEN Xiaoqin LIU Shang SONG Guoli 

机构地区：[1]State Key Laboratory of Cotton Biology,Institute of Cotton Research,Chinese Academy of Agricultural Sciences,Anyang,Henan,China

出　　处：《Journal of Cotton Research》2021年第3期261-267,共7页棉花研究（英文）

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 sequenee with the previously published G raimondii genomes for gene and genome sequence collinearity.Result:A total of 9842%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.

关 键 词：Gossypium raimondii Hi-C Genome assembly Heatmap and collinearity 

分 类 号：S562[农业科学—作物学]