PMAT: an efficient plant mitogenome assembly toolkit using low-coverage HiFi sequencing data
Nanjing Forestry University · State Key Laboratory of Tree Genetics and Breeding · +5 more institutions
Abstract
Abstract Complete mitochondrial genomes (mitogenomes) of plants are valuable resources for nucleocytoplasmic interactions, plant evolution, and plant cytoplasmic male sterile line breeding. However, the complete assembly of plant mitogenomes is challenging due to frequent recombination events and horizontal gene transfers. Previous studies have adopted Illumina, PacBio, and Nanopore sequencing data to assemble plant mitogenomes, but the poor assembly completeness, low sequencing accuracy, and high cost limit the sampling capacity. Here, we present an efficient assembly toolkit (PMAT) for de novo assembly of plant mitogenomes using low-coverage HiFi sequencing data. PMAT has been applied to the de novo assembly…
Citation impact
- FWCI
- 23.42
- Percentile
- 100%
- References
- 77
Authors
10- CBChangwei BiCorresponding
Nanjing Forestry University, State Key Laboratory of Tree Genetics and Breeding
- FSFei Shen
Beijing Academy of Agricultural and Forestry Sciences
- FHFuchuan Han
Chinese Academy of Forestry
- YQYanshu Qu
Nanjing Forestry University, State Key Laboratory of Tree Genetics and Breeding
- JHJing Hou
Nanjing Forestry University, State Key Laboratory of Tree Genetics and Breeding
Topics & keywords
- Biology
- Computational biology
- Evolutionary biology
Funding
- NNNational Natural Science Foundation of ChinaAward: 31901331
- GOGovernment of Jiangsu Province
- NSNatural Science Foundation of Jiangsu ProvinceAward: BK20220414
- CAChinese Academy of Agricultural Sciences
- JPJiangsu Provincial Key Research and Development ProgramAward: BE2021366
- KIKunming Institute of Botany, Chinese Academy of Sciences