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Correction to: De novo genome assembly of the endangered Acer yangbiense, a plant species with extremely small populations endemic to Yunnan De novo genome assembly of the endangered Acer yangbiense, a plant species with extremely small populations endemic to Yunnan Province, China
- Source :
- GigaScience
- Publication Year :
- 2019
- Publisher :
- Oxford University Press, 2019.
-
Abstract
- Background Acer yangbiense is a newly described critically endangered endemic maple tree confined to Yangbi County in Yunnan Province in Southwest China. It was included in a programme for rescuing the most threatened species in China, focusing on “plant species with extremely small populations (PSESP)”. Findings We generated 64, 94, and 110 Gb of raw DNA sequences and obtained a chromosome-level genome assembly of A. yangbiense through a combination of Pacific Biosciences Single-molecule Real-time, Illumina HiSeq X, and Hi-C mapping, respectively. The final genome assembly is ∼666 Mb, with 13 chromosomes covering ∼97% of the genome and scaffold N50 sizes of 45 Mb. Further, BUSCO analysis recovered 95.5% complete BUSCO genes. The total number of repetitive elements account for 68.0% of the A. yangbiense genome. Genome annotation generated 28,320 protein-coding genes, assisted by a combination of prediction and transcriptome sequencing. In addition, a nearly 1:1 orthology ratio of dot plots of longer syntenic blocks revealed a similar evolutionary history between A. yangbiense and grape, indicating that the genome has not undergone a whole-genome duplication event after the core eudicot common hexaploidization. Conclusion Here, we report a high-quality de novo genome assembly of A. yangbiense, the first genome for the genus Acer and the family Aceraceae. This will provide fundamental conservation genomics resources, as well as representing a new high-quality reference genome for the economically important Acer lineage and the wider order of Sapindales.
- Subjects :
- China
genome annotation
Endangered species
Sequence assembly
Health Informatics
Acer
Data Note
Acer yangbiense
Chromosomes, Plant
Contig Mapping
PacBio sequencing
biology
Whole Genome Sequencing
Ecology
Endangered Species
Small population size
Molecular Sequence Annotation
PSESP
biology.organism_classification
Computer Science Applications
Plant species
genome assembly
Corrigendum
Genome, Plant
Subjects
Details
- Language :
- English
- ISSN :
- 2047217X
- Volume :
- 8
- Issue :
- 9
- Database :
- OpenAIRE
- Journal :
- GigaScience
- Accession number :
- edsair.doi.dedup.....2d4ef8ff258281a484beb0fa9cea9c23