Journal
GIGASCIENCE
Volume 8, Issue 7, Pages -Publisher
OXFORD UNIV PRESS
DOI: 10.1093/gigascience/giz085
Keywords
Acer yangbiense; PSESP; PacBio sequencing; genome assembly; genome annotation
Categories
Funding
- NSFC (National Natural Science Foundation of China)-Yunnan Joint Fund [U1302262]
- Science and Technology Basic Resources Investigation Program of China [2017FY100100]
- National Key RAMP
- D Program of China [2017YFC0505200]
- Yunnan Science and Technology Talents and Platform Program for Key Laboratory Construction [2018DG004]
- Yunnan Science and Technology Innovation Team Program for PSESP (Plant Species with Extremely Small Populations) Conservation and Utilization [2019HC015]
- STS Program of the Chinese Academy of Sciences Full Cover Conservation Project of Native Plants in Southwestern China (KFJ-3W) [1]
Ask authors/readers for more resources
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 similar to 666 Mb, with 13 chromosomes covering similar to 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.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available