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- Title
A high-quality genome assembly and annotation of Quercus acutissima Carruth.
- Authors
Dan Liu; Xiaoman Xie; Boqiang Tong; Chengcheng Zhou; Kai Qu; Haili Guo; Zhiheng Zhao; El-Kassaby, Yousry A.; Wei Li; Wenqing Li
- Abstract
Introduction: Quercus acutissima is an economic and ecological tree species often used for afforestation of arid and semi-arid lands and is considered as an excellent tree for soil and water conservation. Methods: Here, we combined PacBio long reads, Hi-C, and Illumina short reads to assemble Q. acutissima genome. Results: We generated a 957.1 Mb genome with a contig N50 of 1.2 Mb and scaffold N50 of 77.0 Mb. The repetitive sequences constituted 55.63% of the genome, among which long terminal repeats were the majority and accounted for 23.07% of the genome. Ab initio, homology-based and RNA sequencebased gene prediction identified 29,889 protein-coding genes, of which 82.6% could be functionally annotated. Phylogenetic analysis showed that Q. acutissima and Q. variabilis were differentiated around 3.6 million years ago, and showed no evidence of species-specific whole genome duplication. Conclusion: The assembled and annotated high-quality Q. acutissima genome not only promises to accelerate the species molecular biology studies and breeding, but also promotes genome level evolutionary studies.
- Subjects
OAK; ARID regions; MOLECULAR biology; WATER conservation; SOIL conservation
- Publication
Frontiers in Plant Science, 2022, Vol 13, p1
- ISSN
1664-462X
- Publication type
Article
- DOI
10.3389/fpls.2022.1068802