| GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes | |
Jin, Jian-Jun; Yu, Wen-Bin ; Yang, Jun-Bo; Song, Yu5,5,5; dePamphilis, Claude W.; Yi, Ting-Shuang; Li, De-Zhu
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| 2020 | |
| Source Publication | GENOME BIOLOGY
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| ISSN | 1474-760X |
| Volume | 21Issue:1Pages:- |
| Abstract | GetOrganelle is a state-of-the-art toolkit to accurately assemble organelle genomes from whole genome sequencing data. It recruits organelle-associated reads using a modified "baiting and iterative mapping" approach, conducts de novo assembly, filters and disentangles the assembly graph, and produces all possible configurations of circular organelle genomes. For 50 published plant datasets, we are able to reassemble the circular plastomes from 47 datasets using GetOrganelle. GetOrganelle assemblies are more accurate than published and/or NOVOPlasty-reassembled plastomes as assessed by mapping. We also assemble complete mitochondrial genomes using GetOrganelle. GetOrganelle is freely released under a GPL-3 license (https://github.com/Kinggerm/GetOrganelle). |
| Keyword | PLASTID GENOME PLANT MITOCHONDRIAL HORIZONTAL TRANSFER CHLOROPLAST GENOME DNA EVOLUTION GENE DIVERSIFICATION DYNAMICS REVEAL |
| Subject Area | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| DOI | 10.1186/s13059-020-02154-5 |
| Indexed By | SCI |
| Language | 英语 |
| WOS ID | WOS:000572293100001 |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | https://ir.xtbg.ac.cn/handle/353005/11809 |
| Collection | 2012年后新成立研究组 |
| Affiliation | 1.[Jin, Jian-Jun 2.Yang, Jun-Bo 3.Yi, Ting-Shuang 4.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming 650201, Yunnan, Peoples R China 5.[Yu, Wen-Bin 6.Chinese Acad Sci, Ctr Integrat Conservat, Xishuangbanna Trop Bot Garden, Mengla 666303, Yunnan, Peoples R China 7.Chinese Acad Sci, Core Bot Gardens, Ctr Conservat Biol, Mengla 666303, Yunnan, Peoples R China 8.Chinese Acad Sci, Southeast Asia Biodivers Res Inst, Yezin 05282, Nay Pyi Taw, Myanmar 9.[dePamphilis, Claude W.] Penn State Univ, Dept Biol, University Pk, PA 16801 USA |
| Recommended Citation GB/T 7714 | Jin, Jian-Jun,Yu, Wen-Bin,Yang, Jun-Bo,et al. GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes[J]. GENOME BIOLOGY,2020,21(1):-. |
| APA | Jin, Jian-Jun.,Yu, Wen-Bin.,Yang, Jun-Bo.,Song, Yu.,dePamphilis, Claude W..,...&Li, De-Zhu.(2020).GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes.GENOME BIOLOGY,21(1),-. |
| MLA | Jin, Jian-Jun,et al."GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes".GENOME BIOLOGY 21.1(2020):-. |
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| GetOrganelle_ a fast（1951KB） | 期刊论文 | 出版稿 | 开放获取 | CC BY-NC-SA | View Download | |
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