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NOVOWrap: An automated solution for plastid genome assembly and structure standardization | |
Wu, Ping1; Chen, Hao; Xu, Chao2; Yang, Jie1; Zhang, Xian Chun1; Zhou, Shi Liang1 | |
2021 | |
发表期刊 | MOLECULAR ECOLOGY RESOURCES |
ISSN | 1755-098X |
卷号 | 21期号:6页码:2177-2186 |
摘要 | Plastid genomes play an important role in genomics and evolutionary biology. Next-generation sequencing has revolutionized plastid genomic data acquisition to the point that genome assembly has become a bottleneck for widespread utilization of plastid genome data. To solve this problem, we developed an open-source, cross-platform tool known as, NOVOWrap, which includes both command-line and graphical interfaces for automatically assembling plastid genomes on personal computers. With minimal inputs, settings, and user intervention, NOVOWrap can automatically assemble plastid genomes, validate results and standardize the structure using affordable computer resources. The performance of this software has been successfully benchmarked against the plastid genomes of 11 species belonging to lycopods, gymnosperms, and angiosperms. By liberating researchers from laborious and cumbersome computer manipulations and create reliable and standardized genomic data, NOVOWrap is expected to accelerate plastid genome assembly, ease the process of data exchange, and contribute to downstream analysis. |
关键词 | assembly plastid genome standardized structure |
学科领域 | Biochemistry & Molecular Biology ; Ecology ; Evolutionary Biology |
DOI | 10.1111/1755-0998.13410 |
收录类别 | SCI |
语种 | 英语 |
WOS关键词 | CHLOROPLAST GENOME ; INVERTED REPEAT ; EXPANSION ; RATES |
WOS研究方向 | Science Citation Index Expanded (SCI-EXPANDED) |
WOS记录号 | WOS:000653966300001 |
出版者 | WILEY |
文献子类 | Article |
出版地 | HOBOKEN |
EISSN | 1755-0998 |
资助机构 | National Natural Science Foundation of China [31872679] ; Strategic Priority Research Program of Chinese Academy of Sciences [XDA19050303, XDA23080204] |
作者邮箱 | slzhou@ibcas.ac.cn |
作品OA属性 | Green Submitted |
引用统计 | |
文献类型 | 期刊论文 |
条目标识符 | http://ir.ibcas.ac.cn/handle/2S10CLM1/26394 |
专题 | 系统与进化植物学国家重点实验室 |
作者单位 | 1.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China 3.Shaanxi Univ Sci & Technol, Xian, Peoples R China |
推荐引用方式 GB/T 7714 | Wu, Ping,Chen, Hao,Xu, Chao,et al. NOVOWrap: An automated solution for plastid genome assembly and structure standardization[J]. MOLECULAR ECOLOGY RESOURCES,2021,21(6):2177-2186. |
APA | Wu, Ping,Chen, Hao,Xu, Chao,Yang, Jie,Zhang, Xian Chun,&Zhou, Shi Liang.(2021).NOVOWrap: An automated solution for plastid genome assembly and structure standardization.MOLECULAR ECOLOGY RESOURCES,21(6),2177-2186. |
MLA | Wu, Ping,et al."NOVOWrap: An automated solution for plastid genome assembly and structure standardization".MOLECULAR ECOLOGY RESOURCES 21.6(2021):2177-2186. |
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Molecular Ecology Re(924KB) | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | 浏览 请求全文 |
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