Chromosome-scale genome assembly of sweet tea (Lithocarpus polystachyus Rehder).

Autor: Liu H; State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, Guangdong, China. liuhui06@scbg.ac.cn.; South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China. liuhui06@scbg.ac.cn., Zhang R; Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations/Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, Yunnan, China., Zhou BF; State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, Guangdong, China.; South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China., Shen Z; State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, Guangdong, China.; South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China., Chen XY; State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, Guangdong, China.; South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China., Gao J; CAS Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical Garden/Center of Conservation Biology, Core Botanical Gardens, Chinese Academy of Sciences, Menglun, 666303, Yunnan, China., Wang B; State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, Guangdong, China. baosheng.wang@scbg.ac.cn.; South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China. baosheng.wang@scbg.ac.cn.
Jazyk: angličtina
Zdroj: Scientific data [Sci Data] 2023 Dec 06; Vol. 10 (1), pp. 873. Date of Electronic Publication: 2023 Dec 06.
DOI: 10.1038/s41597-023-02791-y
Abstrakt: Lithocarpus, with >320 species, is the second largest genus of Fagaceae. However, the lack of a reference genome limits the molecular biology and functional study of Lithocarpus species. Here, we report the chromosome-scale genome assembly of sweet tea (Lithocarpus polystachyus Rehder), the first Lithocarpus species to be sequenced to date. Sweet tea has a 952-Mb genome, with a 21.4-Mb contig N50 value and 98.6% complete BUSCO score. In addition, the per-base consensus accuracy and completeness of the genome were estimated at 60.6 and 81.4, respectively. Genome annotation predicted 37,396 protein-coding genes, with repetitive sequences accounting for 64.2% of the genome. The genome did not undergo whole-genome duplication after the gamma (γ) hexaploidy event. Phylogenetic analysis showed that sweet tea diverged from the genus Quercus approximately at 59 million years ago. The high-quality genome assembly and gene annotation resources enrich the genomics of sweet tea, and will facilitate functional genomic studies in sweet tea and other Fagaceae species.
(© 2023. The Author(s).)
Databáze: MEDLINE
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