GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes
Kunming Institute of Botany · Chinese Academy of Sciences · +3 more institutions
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…
Citation impact
- FWCI
- 157.95
- Percentile
- 100%
- References
- 71
Authors
7- JJJian‐Jun JinCorresponding
Kunming Institute of Botany, Chinese Academy of Sciences
- WYWen-Bin Yu
Chinese Academy of Sciences, Xishuangbanna Tropical Botanical Garden, Yezin Agricultural University
- JYJun-Bo Yang
Kunming Institute of Botany, Chinese Academy of Sciences
- YSYu Song
Chinese Academy of Sciences, Xishuangbanna Tropical Botanical Garden, Yezin Agricultural University
- CWClaude W. dePamphilis
Pennsylvania State University
Topics & keywords
- Biology
- Genome Biology
- Computational biology
- Genome
- Sequence assembly
- Organelle
- Human genetics
- Evolutionary biology